Two  years field study were carried out in El-Noubaria and Sakha research station, Cotton Research Institute, Agricultural Research Center at Giza, Egypt, during 2018 and 2019 seasons. The aim of this study was to study the effects of inoculating some Egyptian cotton genotypes (Giza 97 and Giza 96) grown on clay and calcareous soils with different bio-fertilizers (Bacillus Polymxa, Bacillus megaterium, Bacillus circulans, Azotobacter and Azospirillum) on yield components and ginned cotton characteristics.  Results showed that when added the bacterial strains to the soil three times at 65, 85 and 105 days after sowing through the irrigation water of cotton plants, the bio treatments improved the absorption and available of NPK leading to reproductive organ, exhibited the result higher significant values due all the treatments with using low amount of mineral fertilizers.  There was a significant increase in Sakha region with clay soil for most traits compared to Noubaria region with calcareous soil, while there were no significant differences in Noubaria region for short fiber index and upper half mean. The bio treatments in most traits under study give that highly significant increased. Generally, the application of Biofertilizer improved yield and its components and ginned cotton properties of some Egyptian cotton genotypes in clay and calcareous soils.